Locus 7069

Sequence ID 3R_DroMel_CAF1
Location 18,674,961 – 18,675,057
Length 96
Max. P 0.813995
window11442 window11443

overview

Window 2

Location 18,674,961 – 18,675,057
Length 96
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 85.89
Mean single sequence MFE -24.82
Consensus MFE -21.07
Energy contribution -21.18
Covariance contribution 0.11
Combinations/Pair 1.18
Mean z-score -1.99
Structure conservation index 0.85
SVM decision value 0.66
SVM RNA-class probability 0.813995
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18674961 96 + 27905053
-UGAGUGGUCCACAUUCCUGGCUGUGGAAUGUGAUCCCCGCAAUUUUCGGCCAUUUCCAUUACGGCCCUGCACUCCAACCAACAC---CCACCGACUUUC
-.((((((..((((((((.......))))))))..))..(((......((((...........)))).)))))))..........---............ ( -24.50)
>DroSec_CAF1 104933 96 + 1
-UGAGUGGUCCACAUUCCUGGCUGUGGAAUGUGAUCCCCGCAAUUUUCGGCCAUUUCCAUUAUGGCCCUGCACUCCAAACCCCAC---AUACCGACUUUU
-.((((((..((((((((.......))))))))..))..(((......((((((.......)))))).)))))))..........---............ ( -27.70)
>DroSim_CAF1 103848 96 + 1
-UGAGUGGUCCACAUUCCUGGCUGUGGAAUGUGAUCCCCGCAAUUUUCGGCCAUUUCCAUUACGGCCCUGCACUCCAAACCCCGC---CCACCGACUUUU
-.((((((..((((((((.......))))))))..))..(((......((((...........)))).)))))))..........---............ ( -24.50)
>DroEre_CAF1 108057 96 + 1
-UGAGUGGUCCGCAUUCCUGGCUGUGGAAUGUGAUCCCCGCAAUUUUCGGCCAUUUCCAUUACGGCCCUGCACUCCAAACUCCAC---CCACCGACUUUU
-.((((((..((((((((.......))))))))..))..(((......((((...........)))).)))))))..........---............ ( -24.10)
>DroYak_CAF1 105762 98 + 1
-UGAGUGGUCCACAUUCCUGGCCGUGGAAUGUGAUCCCCGCAAUUUUCGGCCAUUUCCAUUACGGCCCUGCACUCCA-ACUCCAAGCACCACAGAAUUUU
-...(((((.((((((((.......))))))))......(((......((((...........)))).)))......-.........)))))........ ( -25.60)
>DroAna_CAF1 99633 91 + 1
CUGGGCGGUCGACAUUCCUGCCCGUGGAAUGUGAUCUCCGCAAUUUUCGGCCAUUUCCAUUACGACU----ACCCCGACUCCCUU---UUUCCUACUU--
..(((..(((((((((((.......))))))).....(((.......)))............)))).----.)))..........---..........-- ( -22.50)
>consensus
_UGAGUGGUCCACAUUCCUGGCUGUGGAAUGUGAUCCCCGCAAUUUUCGGCCAUUUCCAUUACGGCCCUGCACUCCAAACCCCAC___CCACCGACUUUU
..(((((...((((((((.......))))))))...............((((...........))))...)))))......................... (-21.07 = -21.18 +   0.11)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,674,961 – 18,675,057
Length 96
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 85.89
Mean single sequence MFE -30.35
Consensus MFE -25.27
Energy contribution -25.25
Covariance contribution -0.02
Combinations/Pair 1.19
Mean z-score -1.60
Structure conservation index 0.83
SVM decision value 0.04
SVM RNA-class probability 0.553672
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18674961 96 - 27905053
GAAAGUCGGUGG---GUGUUGGUUGGAGUGCAGGGCCGUAAUGGAAAUGGCCGAAAAUUGCGGGGAUCACAUUCCACAGCCAGGAAUGUGGACCACUCA-
............---..........((((((((((((((.......)))))).....))))..((.(((((((((.......))))))))).)))))).- ( -30.10)
>DroSec_CAF1 104933 96 - 1
AAAAGUCGGUAU---GUGGGGUUUGGAGUGCAGGGCCAUAAUGGAAAUGGCCGAAAAUUGCGGGGAUCACAUUCCACAGCCAGGAAUGUGGACCACUCA-
.(((.((.....---...)).))).((((((((((((((.......)))))).....))))..((.(((((((((.......))))))))).)))))).- ( -30.70)
>DroSim_CAF1 103848 96 - 1
AAAAGUCGGUGG---GCGGGGUUUGGAGUGCAGGGCCGUAAUGGAAAUGGCCGAAAAUUGCGGGGAUCACAUUCCACAGCCAGGAAUGUGGACCACUCA-
.(((.((.(...---.).)).))).((((((((((((((.......)))))).....))))..((.(((((((((.......))))))))).)))))).- ( -32.30)
>DroEre_CAF1 108057 96 - 1
AAAAGUCGGUGG---GUGGAGUUUGGAGUGCAGGGCCGUAAUGGAAAUGGCCGAAAAUUGCGGGGAUCACAUUCCACAGCCAGGAAUGCGGACCACUCA-
.........(((---((((..((((.(((....((((((.......))))))....))).))))..((.((((((.......)))))).)).)))))))- ( -29.30)
>DroYak_CAF1 105762 98 - 1
AAAAUUCUGUGGUGCUUGGAGU-UGGAGUGCAGGGCCGUAAUGGAAAUGGCCGAAAAUUGCGGGGAUCACAUUCCACGGCCAGGAAUGUGGACCACUCA-
..(((((((.......))))))-).((((((((((((((.......)))))).....))))..((.(((((((((.......))))))))).)))))).- ( -32.90)
>DroAna_CAF1 99633 91 - 1
--AAGUAGGAAA---AAGGGAGUCGGGGU----AGUCGUAAUGGAAAUGGCCGAAAAUUGCGGAGAUCACAUUCCACGGGCAGGAAUGUCGACCGCCCAG
--..........---..(((.((((.(((----..(((((((((......))....)))))))..)))(((((((.......)))))))))))..))).. ( -26.80)
>consensus
AAAAGUCGGUGG___GUGGGGUUUGGAGUGCAGGGCCGUAAUGGAAAUGGCCGAAAAUUGCGGGGAUCACAUUCCACAGCCAGGAAUGUGGACCACUCA_
.........................((((....((((((.......))))))...........((.(((((((((.......))))))))).)))))).. (-25.27 = -25.25 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:43 2006